Sequence
atgc intronic sequence ATGC exonic sequence...tttatttacctgctgctcttttgtggtctacattagaatttgctttggccttagtttgcggtttgggcttttgtaatgttctgtttatgtggtattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G078396_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g56960.1 (Oryza sativa), 3'ss of exon 2
tttatttacctgctgctcttttg-tggtctacattagaatttgctttggccttagtttgcggtttgggctt---ttgtaatgttctgtttatgtggtatt-gcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAG
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-----ttacctgctgttctcttgatcctttgtctacagaattacctaatcacaggtttatgggttatggttcaattctaatgttcctttggtgtcacatttgcagACAATGCTGGAGTCATTGTGAACCCCAAGGGAGAGATGAAAG
upper sequence: GRMZM2G078396_T03 (Zea mays), 3'ss of exon 3
lower sequence: PP1S62_136V6.1 (Physcomitrella patens), 3'ss of exon 2
-----tttatttacctgctgctcttttgtggtctacattagaatttgctttggccttagtttgcggtttgggcttttgtaatgttctgtttatgtggtattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAG
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ggaggtatgatggtgagcggggctcagatggt----gttgtaggttgtggtgggatggataattgtggagagctaacgttgagggatggtt-tgggtttgtgcagACAATGCTGGCGTGATCGTGAATCCGAAGGGAGAAATGAAGG
upper sequence: GRMZM2G078396_T03 (Zea mays), 3'ss of exon 3
lower sequence: PP1S16_112V6.1 (Physcomitrella patens), 3'ss of exon 2
tttatttacctgctgctcttttgt--ggtctacattagaatttgctttggccttagtttgcggtttgggcttttgtaatgttctgtttatg----tggtat-tgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAG
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-------gtctgttcctcatttatttgctttgtttcagtatctggttgatgaattgcttgcgattacgattgctatcgactgtcattgatggtttctgtatcttcagATAATGCCGGAGTAATTGTGAACCCCAAGGGAGAAATGAAAG
upper sequence: GRMZM2G078396_T03 (Zea mays), 3'ss of exon 3
lower sequence: PP1S280_69V6.1 (Physcomitrella patens), 3'ss of exon 2
----tttatttacctgctgctc---ttttgtggtcta--cattagaatttgctttggccttagtttgcggtttgggcttttgtaatgttctgtttatgtggtattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAG
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attctaagttgaagtagtgtataagcctggagattcaatccttatagttt--tcgagcaatagttaatgat--gacctgtttggatcttatgctt---tggc--cgcagACAATGCTGGTGTTATTGTAAACCCCAAGGGAGAAATGAAAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|113670582|gb|DW820560.1|DW820560EST: GTCTACATGTACTTTGAAG ACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAG
genomic: GTCTACATGTACTTTGAAGgtgcatttct ... ggtattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggccttagtttgcggtttgggcttttgtaatgttctgtttatgtggtattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAG
ttttgtaat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttatttacctgctgctcttttgtggtctacattagaatttgctttggccttagtttgcggtttgggcttttgtaatgttctgtttatgtggtattgcagACAATGCTGGAGTGATTGTGAACCCAAAGGGAGAGATGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - cctgctg
- - - - - - - - - - - - - - - - - - - tttgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttttg